Polygenic Score (PGS) ID: PGS004697

Predicted Trait
Reported Trait Coronary heart disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Additional Trait Information European
Released in PGS Catalog: March 18, 2024
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Score Details

Score Construction
PGS Name eur_anc_hg37CSx
Development Method
Name PRS-CSx
Parameters global shrinkage phi=1e-2
Variants
Original Genome Build hg19
Number of Variants 1,120,251
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000602
Citation (link to publication) Smith JL et al. Circ Genom Precis Med (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 82.9%
East Asian: 11.4%
African: 4.1%
Hispanic or Latin American: 1.6%
1,866,346 individuals (100%)
Score Development/Training
European: 100%
56,359 individuals (100%)
PGS Evaluation
African: 20%
Hispanic or Latin American: 20%
East Asian: 20%
European: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90132305
Europe PMC: 35915156
 30,648 individuals Hispanic or Latin American BBJ, CARDIoGRAMplusC4D, MVP, UKB
GWAS Catalog: GCST90132305
Europe PMC: 35915156
 76,709 individuals African American or Afro-Caribbean BBJ, CARDIoGRAMplusC4D, MVP, UKB
GWAS Catalog: GCST90132305
Europe PMC: 35915156
 212,453 individuals East Asian BBJ, CARDIoGRAMplusC4D, MVP, UKB
GWAS Catalog: GCST90132305
Europe PMC: 35915156
 773,268 individuals European BBJ, CARDIoGRAMplusC4D, MVP, UKB
GWAS Catalog: GCST90132302
Europe PMC: 35915156
 773,268 individuals European CARDIoGRAMplusC4D, MVP, UKB
Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
—
[
  • 24,041 cases
  • , 32,318 controls
]
 European MVP — — — — —

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM020903 PSS011448|
European Ancestry|
52,702 individuals
 PGP000602 |
Smith JL et al. Circ Genom Precis Med (2024)
 Reported Trait: Incident coronary heart disease OR: 1.55 [1.5, 1.6] AUROC: 0.773 — age, sex, 10 PCs —
PPM020905 PSS011446|
African Ancestry|
17,008 individuals
 PGP000602 |
Smith JL et al. Circ Genom Precis Med (2024)
 Reported Trait: Incident coronary heart disease OR: 1.25 [1.17, 1.33] AUROC: 0.734 — age, sex, 10 PCs —
PPM020907 PSS011449|
Hispanic or Latin American Ancestry|
6,138 individuals
 PGP000602 |
Smith JL et al. Circ Genom Precis Med (2024)
 Reported Trait: Incident coronary heart disease OR: 1.52 [1.36, 1.71] AUROC: 0.708 — age, sex, 10 PCs —
PPM020909 PSS011447|
East Asian Ancestry|
22,751 individuals
 PGP000602 |
Smith JL et al. Circ Genom Precis Med (2024)
 Reported Trait: Incident coronary heart disease OR: 1.51 [1.44, 1.59] AUROC: 0.756 — age, sex, 10 PCs —
PPM020911 PSS011450|
South Asian Ancestry|
9,178 individuals
 PGP000602 |
Smith JL et al. Circ Genom Precis Med (2024)
 Reported Trait: Incident coronary heart disease OR: 2.47 [2.23, 2.73] AUROC: 0.803 — age, sex, 10 PCs —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS011446 — —
[
  • 1,359 cases
  • , 15,649 controls
]
 — African unspecified — ARIC, CHS, MESA, WHI, eMERGE —
PSS011447 — —
[
  • 6,321 cases
  • , 16,430 controls
]
 — East Asian — BBJ, OACIS, TaiChi —
PSS011448 — —
[
  • 4,970 cases
  • , 47,732 controls
]
 — European — ARIC, CHS, MESA, WHI, eMERGE —
PSS011449 — —
[
  • 314 cases
  • , 5,824 controls
]
 — Hispanic or Latin American — MESA, WHI, eMERGE —
PSS011450 — —
[
  • 517 cases
  • , 8,661 controls
]
 — South Asian — UKB —